Arrival and Registration (IISER - Kolkata)

Lunch

Overview of course and introduce all people

Ramanathan Natesh, Partha P Datta and Smarajit Polley.

L1: Keynote Lecture 1: Single-Particle methods in electron microscopy. Past, present and future.

Joachim Frank

Coffee break

GL 1: Deep understanding of protein function using structural cryo electron microscopy

Elena Orlova

Participants and Speakers Mixer, Round table discussion, networking through one to one meeting, flash introduction.

Partha P Datta, Jayati Sengupta, Smarajit Polley and Moumita Datta.

Dinner

Participants meet the speakers during dinner

L2: EM sample, specimen preparation methods

Ramanathan Natesh

L3: Principles of TEM Image formation, Particle detection from TEM images and noise handling

Rajendra K Agrawal

Lunch

Practical 1 : CryoEM specimen preparation (Vitrobot) - hands on and data collection platform tour

Jayati/Smarajit/Moumita/Manidipa/Partha/Natesh

15:00 to 15:15 Coffee break

L4: Basic Concepts of Fourier Transform in TEM image analysis

Elena Orlova

Dinner and Meet the speakers

L5: Contrast transfer function, Point Spread function and its effect on image acquisition and concepts of convolution etc.

Elena Orlova

GL 2: “Functional complexes of the mammalian mitochondrial ribosome as revealed by cryo-EM"

Rajendra K Agrawal

GL 3: “Time-Resolved Cryo-electron Microscopy"

Joachim Frank

Lunch

Practical 2: CryoEM specimen preparation (Vitrobot) - hands on and data collection platform tour

Jayati/Smarajit/Moumita/Manidipa/Partha/Natesh

15:00 to 15:15 Coffee break

Participants Poster Presentation 1 (P1 to P10)

Dinner and Meet the speakers

L6: Movie processing, Image selection and Initial Model generation .

José María Carazo

L7: Methods in single particle 3D orientation determination

Partha P Datta

Lunch

Practical 3: EMAN v2.1. Defocus determination, particle picking, 2D classification, Image processing and 3D reconstruction

Steven Ludtke/Mondipa/Jayati/Natesh

15:00 to 15:15 Coffee break

GL 4: “In situ structure determination of viral proteins by cryo-electron tomography"

Moumita Datta

Participants Poster Presentation 2 (P11 to P20)

Dinner and Meet the speakers

L8: Multivariate Statistical Analysis and Classification of single particles

Montserrat Samsó

L9: Classifications and Refinement, Dealing with Heterogeneity and Resolution.

Smarajit Polley

Lunch

Practical 4: Relion session 1

Somnath/Nayanika Sengupta

15:00 to 15:15 Coffee break

GL 5: “High-resolution single-particle cryo-EM”

Dmitry Lyumkis

Participants Poster Presentation 3 (P21 to P30)

Dinner and Meet the speakers

L10: Single-particle 3D reconstruction, post-processing, and evaluation of anisotropy and resolution

Dmitry Lyumkis

L11: Point Group symmetries

Manidipa Banerjee

Lunch

Practical 5: Relion session 2

Somnath/Nayanika Sengupta

15:00 to 15:15 Coffee break

GL 6: “Local and Local Directional Resolution: Its impact in map validation, map sharpening and beyond"

José María Carazo

Participants Poster Presentation 4 (P31 to P39)

Dinner and Meet the speakers

L12: Helical reconstruction

Arjen Jakobi

L13: MicroED - 3D electron Crystallography

Brent L. Nannenga

Lunch

Practical 6: Scipion 1 - On the fly data preprocessing, 2D classification using deep learning and initial volume generation.

Carlos Oscar Sorzano and José María Carazo

15:00 to 15:15 Coffee break

GL 7: “The Many Layers of Allosterism of the Ryanodine Receptor“

Montserrat Samsó

GL 8: “Structural basis for filament formation of selective autophagy receptors“

Arjen Jakobi

Dinner and Meet the speakers

L14:Validation of 3D EM reconstructions

José María Carazo

L15: Participating Industry ThermoFisher SCIENTIFIC : Invited Lecture: Microscopes for cryo-EM data collection.

TBA

Lunch

Practical 7: Scipion 2 – 3D reconstruction

Carlos Oscar Sorzano and José María Carazo

15:00 to 15:15 Coffee break

GL 9: “MicroED method development and application“

Brent L. Nannenga

GL 10: “Capturing and imaging membrane fusion using electron cryo-tomography“

Kelly Lee

Participants Oral Presentation 1 (ST 1 to ST3)

Dinner and Meet the speakers

Group Excursion – historic and modern places of Kolkata and dinner-cum river cruise on the Ganges

Course Dinner

L16: Reconstruction principles and applications of Cryo Tomography and CLEM. Cellular Tomography and Subtomogram averaging

Grant Jensen

L17: Cryo-FIB Milling of Cells for Electron Tomography

Elizabeth Wright

Lunch

Practical 8: Tomographic reconstruction practicals (IMOD & PEET)

Vidya Mangala Prasad/Kelly Lee/Grant Jensen/Elizabeth Wright/Moumita Datta

15:00 to 15:15 Coffee break

GL 11: Keynote Lecture 2: “Progress and potential of electron cryotomography"

Grant Jensen

Participants Oral Presentation 2 (ST4 to ST9)

Dinner and Meet the speakers

L18: Participating Industry Invited Lecture: High pressure freezing, freeze substitution and / or cryo-sectioning of frozen hydrated samples and Detectors for cryoEM Data Collection

Leica/JEOL

L19: Interpretation of maps, fitting / docking of atomic structures

Rangana Warshamanage

Lunch

Practical 9: Interpretation of maps, fitting of atomic structures (Coot/Chimera) and refinement (refmac)

Rangana Warshamanage

15:00 to 15:15 Coffee break

L20a: “Closing the gaps: Improving direct electron detection and beyond”

Dr. Sahil Gulati AMETEK-Gatan

L20b: “Participating Industry Invited Lecture”

Leica/JEOL

GL 12: “Studies of virus assembly using electron cryo-tomography"

Elizabeth Wright

Dinner and Meet the speakers

L21: Flexible fitting into cryo-EM maps and applications

Dr. Florence Tama

L22: Validation, assessment, Data deposition : EMDB, EMPAIR and PDB: trends, developments, opportunities and challenges.

Osman Salih

Lunch

Practical 10: Flexible fitting (MDFit and Ensemble fittings.)

Florence Tama/Osamu Miyashita/Jayati Sengupa

15:00 to 15:15 Coffee break

Questions, Suggestions, Summary and Certificate distribution.

Dinner and Meet the speakers